Sorry that whole recovery thing is not going as you'd hoped. At least you have plenty of time to work on that hill program on your trainer. You'll so kick my butt the next time up one of those mega hills.
I used to run years ago and I was not the most gifted at it as well. Perhaps, as a show of support, I could force myself to start again and we could plan to do a Duathlon next season. Urghhh....running.....gasping for breath....I'm remembering it all to well.